Fig. 2

a Microbes that differentiate Enterobacteriaceae (ESBL-E) carriers and non-carriers at genus level, using DESeq2 with bootstrap iterations. The bootstrap model consists in 200 random selections of non-carriers (n = 40). We represented the genera that are significantly different between ESBL-E carriers and non-carriers in more than 70% of the iterations, with a FDR corrected p value < 0.10. Genera with increased abundance in ESBL-E carriers are represented in red, and genera with decreased abundance are represented in blue, b Microbes that differentiate Enterobacteriaceae (ESBL-E) carriers (ESBL+) and non-carriers (ESBL-) at species level, using DESeq2 with bootstrap iterations. The bootstrap model consists in 200 random selections of non-carriers (n = 40). We represented the species that are significantly different between ESBL-E carriers and non-carriers in more than 70% of the iterations, with a FDR corrected p value < 0.10 . Species with increased abundance in ESBL-E carriers are represented in red, and species with decreased abundance are represented in blue